BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0036.0340.p (423 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311427|ref|YP_003775519.1| signal transduction histidine k... 681 0.0 gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protei... 117 1e-27 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 111 1e-25 gi|300312093|ref|YP_003776185.1| hypothetical protein Hsero_2782... 111 1e-25 gi|300311453|ref|YP_003775545.1| signal transduction containing ... 109 4e-25 >gi|300311427|ref|YP_003775519.1| signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 560 Score = 681 bits (1757), Expect = 0.0, Method: Compositional matrix adjust. Identities = 342/423 (80%), Positives = 373/423 (88%), Gaps = 1/423 (0%) Query: 1 MKLTAVQDYEPRKRPWYLQAVQQGRETWSPVYVDYRNKAIVGINLSKPIFAEDGSLLGVA 60 M+L A Q+YEPRKRPWY+QAVQ+GRETWS VY DYR K + GINLSKPIF DG LLGVA Sbjct: 139 MELVAAQEYEPRKRPWYVQAVQRGRETWSSVYADYRQKHL-GINLSKPIFDADGKLLGVA 197 Query: 61 NSSIGLQQLTDLLRQVPLSAQGVAFVTEMKGDMVATSLDEPIYQAGENGGEPRRLNAGQS 120 NSSIGL +LT LLR +PL A GVAFVTE+ GDM+A S++EP++Q + + RRLNA QS Sbjct: 198 NSSIGLLRLTTLLRALPLGAHGVAFVTELNGDMIADSVNEPLHQIRDQDPDLRRLNASQS 257 Query: 121 KSPLVRQAFAEVQRYLGTHPPEPDKLILLGSRSEGSKIEVAFRLYRDPAGLAWLSISAAP 180 SPLVRQA+ EV+RYL P + KL+LL SR+EG KIEVAFRL+ D AGL WL+ISAAP Sbjct: 258 SSPLVRQAYEEVRRYLARQPAQSGKLMLLSSRTEGGKIEVAFRLHHDAAGLDWLAISAAP 317 Query: 181 RSDFLGSVTSGVYQTLTLGLMAVCLTFVIGFLLLRWVLRDIRKLTLAAKSIGNGSPFPDL 240 RSDFLGSVTSGVYQTL LGLMAVCLTFVIGFLLLRWVLRDIR+LT AAKSIGNGSPFPDL Sbjct: 318 RSDFLGSVTSGVYQTLMLGLMAVCLTFVIGFLLLRWVLRDIRRLTQAAKSIGNGSPFPDL 377 Query: 241 NIDRNDEIGQLAQSFVEMERNLRTDRLTNVLNRDSLIAQIDFRRRNSSQAVPLHFALLFI 300 NI+RNDEIGQLAQSFVEMERNLRTDRLTNVLNRDSLIAQIDFRR N PLHF LLFI Sbjct: 378 NINRNDEIGQLAQSFVEMERNLRTDRLTNVLNRDSLIAQIDFRRSNCVDGSPLHFGLLFI 437 Query: 301 DLDRFKAVNDEYGHDEGDKVLIAIAERLQHSLRHDDSVARFGGDEFVVYLHGVTEMDVAR 360 DLDRFKAVNDEYGHDEGDKVL+ IA+RLQH+LRHDDSVARFGGDEFVVYLHGV++M+VAR Sbjct: 438 DLDRFKAVNDEYGHDEGDKVLVTIAQRLQHTLRHDDSVARFGGDEFVVYLHGVSDMEVAR 497 Query: 361 SIADKIRHAVNKPIAGRDGQDYTVDASVGVSLYPDDGLDVETLLRVADSRMFDQKRLHRI 420 SIADKIRHAVNKPI GR+GQ Y VDASVGVSLYPDDGLDVETLLRVADSRMFDQKRLHRI Sbjct: 498 SIADKIRHAVNKPIPGREGQQYVVDASVGVSLYPDDGLDVETLLRVADSRMFDQKRLHRI 557 Query: 421 LSV 423 LSV Sbjct: 558 LSV 560 >gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 117 bits (294), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 78/206 (37%), Positives = 122/206 (59%), Gaps = 5/206 (2%) Query: 216 WVLRDIRKLTLAAKSIGNGSPFPDLNID-RNDEIGQ-LAQSFVEMERNLRTDRLTNVLNR 273 W+ I +TLAA +I + D ++ R ++ + LA + E+ + + D+LT + NR Sbjct: 218 WLAVLIIVVTLAALTIALLTSVLDARLESRTAKLARSLAAANEELTQMVLHDQLTRLPNR 277 Query: 274 DSLIAQIDFRRRNSSQAVPLHFALLFIDLDRFKAVNDEYGHDEGDKVLIAIAERLQHSLR 333 L +++ + N + HFAL+F+DLD FKA+ND GH GD++L+ +A+RL S R Sbjct: 278 TLLEDRLN-QAINKAAREQGHFALMFMDLDGFKAINDSLGHHVGDRLLVEVAQRLTSSSR 336 Query: 334 HDDSVARFGGDEFVVYLHGVTEMDVARSIADKIRHAVNKPIAGRDGQDYTVDASVGVSLY 393 +D+VAR GGDEFV+ + T D A +A+K+ AVN+P D + V ASVG+++Y Sbjct: 337 ANDTVARLGGDEFVILVDLNTPED-AMGVAEKLVEAVNQPFK-VDQHELRVSASVGIAIY 394 Query: 394 PDDGLDVETLLRVADSRMFDQKRLHR 419 P+DG L+ AD+ M+ KR R Sbjct: 395 PEDGATRHDLVINADAAMYHTKRSGR 420 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 111 bits (278), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 70/164 (42%), Positives = 94/164 (57%), Gaps = 3/164 (1%) Query: 257 EMERNLRTDRLTNVLNRDSLIAQIDFRRRNSSQAVPLHFALLFIDLDRFKAVNDEYGHDE 316 EM D LT + NR+ L + R + Q L A+ F+DLD+FK +ND GH Sbjct: 261 EMRHQATHDALTGLPNRNMLHEHLQRALRVARQKGALT-AVAFVDLDQFKFINDSLGHQV 319 Query: 317 GDKVLIAIAERLQHSLRHDDSVARFGGDEFVVYLHGVTEMDVA-RSIADKIRHAVNKPIA 375 GD++L +A+RLQ LR D VAR GGDEFV+ L TE + + +I AV +P Sbjct: 320 GDELLKTVAQRLQACLREADMVARQGGDEFVLVLQNQTEGEAGIAEVMQRILAAVARPWQ 379 Query: 376 GRDGQDYTVDASVGVSLYPDDGLDVETLLRVADSRMFDQKRLHR 419 D +++ V AS+GVS YP DG DVE+LL+ ADS M+ K R Sbjct: 380 AGD-REFQVTASIGVSRYPADGKDVESLLKHADSAMYRAKEQGR 422 >gi|300312093|ref|YP_003776185.1| hypothetical protein Hsero_2782 [Herbaspirillum seropedicae SmR1] Length = 601 Score = 111 bits (277), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 76/223 (34%), Positives = 112/223 (50%), Gaps = 35/223 (15%) Query: 216 WVLRDIRKLTLAAKSIGNGS-PFPDLNIDRNDEIGQLAQSF-----------VEMERNLR 263 W R +R+ A + G P L +DR DE+GQL +F E++ Sbjct: 352 WFFRPLRRAAALADRMTRGELPLSPLPVDRRDEVGQLTMAFNGLLARLKLHQAELQHQAH 411 Query: 264 TDRLTNVLNRDSLIAQID------FRRRNSSQAVPLHFALLFIDLDRFKAVNDEYGHDEG 317 D LT + NR L ++ R RN LLF+DLD FK +ND GH G Sbjct: 412 HDVLTGLPNRMMLAERMQAALTHACRERNG-------VGLLFLDLDGFKPINDTLGHKAG 464 Query: 318 DKVLIAIAERLQHSLRHDDSVARFGGDEFVVYLHGVTEMDV-----ARSIADKIRHAVNK 372 D+VL I RL+ RH D++AR GGDEFV+ VT++ + A+++A+K V++ Sbjct: 465 DQVLQEITRRLRQVARHGDTLARVGGDEFVLL---VTDLRLPFEQGAQALAEKCIKTVSE 521 Query: 373 PIAGRDGQDYTVDASVGVSLYPDDGLDVETLLRVADSRMFDQK 415 PI D + Y + SVG+++ D D ++LL+ AD M+ K Sbjct: 522 PIC-LDQRQYRLGVSVGIAVC-DGSCDADSLLQAADQAMYAAK 562 >gi|300311453|ref|YP_003775545.1| signal transduction containing PAS/GGDEF/EAL domains protein [Herbaspirillum seropedicae SmR1] Length = 683 Score = 109 bits (273), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 64/152 (42%), Positives = 90/152 (59%), Gaps = 3/152 (1%) Query: 265 DRLTNVLNRDSLIAQIDFRRRNSSQAVPLHFALLFIDLDRFKAVNDEYGHDEGDKVLIAI 324 D LT + NR L +D + ++ LH ++FIDL+RFK +ND GH GD +L+ + Sbjct: 247 DALTGLPNRTLLTRTVD-QALEEARHENLHGCVMFIDLNRFKPINDTLGHVAGDMLLVEV 305 Query: 325 AERLQHSLRHDDSVARFGGDEFVVYLHGVTEMDVARSIADKIRHAVNKPIAGRDGQDYTV 384 A RL+ +LR D VAR G DEF V L G+ + D +A K+ + P DG + V Sbjct: 306 AMRLRRALREQDVVARLGADEFAVALFGI-DKDSPAYVAQKLLALFDDPFF-IDGHELRV 363 Query: 385 DASVGVSLYPDDGLDVETLLRVADSRMFDQKR 416 AS+GVSLYP++ D ETLLR+AD M+ K+ Sbjct: 364 GASIGVSLYPENATDTETLLRLADIAMYRAKQ 395 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.320 0.138 0.397 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 1,347,369 Number of extensions: 58671 Number of successful extensions: 295 Number of sequences better than 1.0e-08: 39 Number of HSP's gapped: 263 Number of HSP's successfully gapped: 39 Length of query: 423 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 335 Effective length of database: 1,203,190 Effective search space: 403068650 Effective search space used: 403068650 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 132 (55.5 bits)